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GSE18618

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Transcriptional Signature and Memory Retention of Human-induced Pluripotent Stem Cells

Organism: Homo sapiens
Platform: GPL570
Samples: 15
Experiment Types:
Expression profiling by array
Submitted: Oct 19 2009
Last Updated: Mar 25 2019
Status: Public on Oct 20 2009
Contact: Alysson,R,Muotri (University of California San Diego)

Relations

BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA121451

Summary

Transient expression of two factors, or from Oct4 alone, resulted in efficient generation of human iPSCs. The reprogramming strategy described revealed a potential transcriptional signature for human iPSCs yet retaining the gene expression of donor cells in human reprogrammed cells free of viral and transgene interference. Genetic reprogramming of somatic cells to a pluripotent state (induced pluripotent stem cells or iPSCs) by over-expression of specific genes has been accomplished using mouse and human cells. However, it is still unclear how similar human iPSCs are to human Embryonic Stem Cells (hESCs). Here, we describe the transcriptional profile of human iPSCs generated without viral vectors or genomic insertions, revealing that these cells are in general similar to hESCs but with significant differences. For the generation of human iPSCs without viral vectors or genomic insertions, pluripotent factors Oct4 and Nanog were cloned in episomal vectors and transfected into human fetal neural progenitor cells. The transient expression of these two factors, or from Oct4 alone, resulted in efficient generation of human iPSCs. The reprogramming strategy described here revealed a potential transcriptional signature for human iPSCs yet retaining the gene expression of donor cells in human reprogrammed cells free of viral and transgene interference. Moreover, the episomal reprogramming strategy represents a safe way to generate human iPSCs for clinical purposes and basic research.

Overall Design

Gene expression profiles measured using human genome Affymetrix Gene Chip arrays were grouped by hierarchical clustering, and correlation coefficients were computed for all pair-wise comparisons

Analysis (1 step)

View Data Processing
Processing steps for GSE18618
  1. Human Gene U133_2 arrays were analyzed by using affymetrix power tools (apt-probeset-summarize -a rma-sketch -a plier-mm-sketch -d ../../Human/CD_HG-U133_Pl us_2_Libfiles/HG-U133_Plus_2.cdf -o gene-level-output CM0811101A.CEL CM0811101B.CEL CM0811101C.CEL CM0811102A.CEL CM08111 02B.CEL CM0811102C.CEL CM081110CA.CEL CM081110CB.CEL CM081110CC.CEL CM081110HA.CEL CM081110HB.CEL CM081110HC.CEL CM081110 RA.CEL CM081110RB.CEL CM081110RC.CEL )

Supplementary Files (1)

GSE18618_RAW.tar Download
GEO Samples (15)

Dataset Citations (1)

Transcriptional signature and memory retention of human-induced pluripotent stem cells.
PMID 19763270 · 2009 · PloS one
Maria C N Marchetto, Gene W Yeo, Osamu Kainohana, Martin Marsala, Fred H Gage, Alysson R Muotri

Linked Publications (1)